Skip to another splice site:
1  
 5'  3'   		2  
 5'  3'   		3  
 5'  3'   		4  
 5'  3'   		5  
 5'  3'   		6  
 5'  3'   		7  
 5'  3'   		8  
 5'  3'   		9  
 5'  3'   		10  
 5'  3'   		11  
 5'  3'   		12  
 5'  3'   		13  
 5'  3'   		14  
 5'  3'   		15  
 5'  3'   		16  
 5'  3'   		17  
 5'  3'   		18  
 5'  3'   		19  
 5'  3'   		20  
 5'  3'   
21  
 5'  3'   		22  
 5'  3'   		23  
 5'  3'   		24  
 5'  3'   		25  
 5'  3'   		26  
 5'  3'   		27  
 5'  3'   		28  
 5'  3'   

Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC

Basic information

species Glycine max
transcript GLYMA11G35460.1
intron # 20
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os12g01390.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataa-----cattgtgccttct-ttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
        || ||||     | |  |  |||   |  | |||    | ||  |||    |  | |||        |||      ||| | | || | || ||||||||||| || |||||||| ||||| ||||| |||||  | |||||||| ||||| |||||||| || || || |||||||| ||||| |||||  | |
--------gtatgca-----actcttccaattcag--tgttattggagtatcatcattctcatgtgctatgtatttaaatgcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: LOC_Os11g01380.1 (Oryza sativa), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttct-ttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
        || ||||    |     |  | | ||  ||     |  |  | | || |  | || ||         |   ||| | | || | || ||||||||||| || |||||||| ||||| ||||| |||||  | |||||||| ||||| |||||||| || || || |||||||| ||||| |||||  | |
--------gtatgcaactcttccaattcagtgtta-ttggagtatcatcattctc-atgtgctatgtatttaaattcttattttcctttatattgtagGTGAACCCTGGAAATGCTCCATTAGTTGTTGGACAGCTACTTGATGATGAGTGCCCTGAAGATTTCATTAAGGGTTTGATTCTGTCTGTCCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G057576_T02 (Zea mays), 3'ss of exon 19
gtattatagtttgcattaataatgctgtaatcttgc---ttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
    |||      | || |     |||| || |||    | |||   ||  |  ||| |      | ||    | |  |  | || || ||| | | ||||| || || || |||||||| || || |||||||| ||| | |||||||||||||| |||||||| ||||| || ||||||||||||||||||||  | |
---gtatgtacatccttgaagtcactgttattttgggcgtcattcttcatctggtatttcaagcatttgtttgatt-gtttccttttgtcttgtatgtagGTCAATCCTGGTAATGCTCCCTTGGTAGTTGGGCAACTTCTGGATGATGAATGCCCGGAAGATTTCATCAAGGGTTTGATTCTCTCTGTTCGTTCTCTGC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G111355_T01 (Zea mays), 3'ss of exon 1
----gtattatagtt-tgcattaataatgctgtaatcttgcttattacacaa-atactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
      |   ||||| ||  ||    |  |||| |  | |    |    |   ||| ||  |    | |  |      | ||    || |  ||| |||  ||||||| || ||||||||||| || || || |||||  |  | |||||||||||||| |||||||||||||| || ||||| ||||||||||||||  | |
gttcagaaggtagttgtgtgttt-cgactctgttaattcgtgcgtcgttcctcataataggttgagtatgagaatggttaat--tcttttttcttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTGAAGATTTTATCAAGGGTTTGATCCTCTCTGTTCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: GRMZM2G430947_T01 (Zea mays), 3'ss of exon 7
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
   |  | || ||  |  |   || |  | || |||    | | | |||| ||  |    | |  |  | | | ||    || | |||| |||  ||||||| || ||||||||||| || || || |||||  |  | ||||||||||||||  ||||||||||||| || ||||| || | |||||||||  | |
--gtagttgtgtgtttcgactctgtta-attcgtgcgccgttc-ctaataataggttgaatatgagaacgattaat--tctttttccttgtttccagGTGAATCCCGGGAATGCTCCATTGGTAGTGGGGCAATTACTTGATGATGAATGCCCTAAAGATTTTATCAAGGGTTTGATCCTATTTGTTCGTTCTCTCC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G11130.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                     |||  ||    ||     ||    |||||   |    |||   ||    | | |||  ||     |   ||| |||||||| || ||||||||||| ||||| || |||||| |  | ||||| |||||||| ||||||||||| |||||| | ||||| ||||||||||| ||||
-------------------gtatgtagtttctttagacttttgttaaatatggtaggattttcatgaaagaattata-tatgcgatcccttttgtagGTGAATCCTGGGAATGCTCCCTTAGTTGTGGGGCAGTTGCTTGATGACGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTTTCTGTTCGTTCATTAC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G08530.1 (Arabidopsis thaliana), 3'ss of exon 21
gtattatagtttgcattaataatgctgtaatcttgcttattacacaaatact-atctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
            | || |    | |||  |      ||| | |        | |  |  ||| | ||    | | ||| | || ||  |   | | |||||||||| ||||||||||| ||||| || |||||| |  | |||||||||||||| ||||||||||| |||||| | ||||||||||||||||| || |
------------gtataaggtttcctgggactacttttaatgcgttggagttcagtttttttttatgaaatatttata-cgtt-tgattctgtcaaagGTGAACCCTGGGAATGCTCCCTTAGTTGTCGGGCAGTTGCTTGATGATGAATGCCCTGAAGATTTTATAAAAGGCCTCATTCTCTCTGTTCGTTCATTGC

upper sequence: GLYMA11G35460.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv13s0067g01290.t01 (Vitis vinifera), 3'ss of exon 21
------------------------gtattatagtttgcatt--aataatgctgtaatcttgc-------ttattacacaaat-------actatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                        | ||| | | |  | ||    | ||| || | || ||        | | | | | |||       | | |  | ||  |       | | ||  | ||      |||| ||||||||||||  | ||||| |||||||| || ||||||||  ||||||||||||| ||||||||||| || |||||  | ||||| ||||| || ||  | |
gtgtgagttccttctagaattctagaattttggatcccctttgggtcatgatgaactcctgtggatgcttcaatgccctaattaattttagtcttcaattatttgattaaattaattgcttttgcttctcttgatagGTGAACCCTAGTAATGCACCTTTAGTTGTGGGGCAGCTGCTAGATGATGAATGTCCAGAAGATTTCATTAAAGGTCTAATTCTTTCTGTCCGGTCGCTGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacaaatactatctactttctctgccccactcataacattgtgccttctttatagGTGAACCCAGGGAATGCTCCTTTAGTCGTTGGGCAGCTTTTAGATGATGAATGCCCAGAAGATTTTATCAAAGGCTTGATTCTCTCTGTTCGTTCCTTAC
                              tcataac  putative branch site (score: 2)
                                         tgccttcttt  putative PPT
                                             ttctttata  TA-rich tract